miRNA display CGI


Results 1 - 17 of 17 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
7335 3' -61.8 NC_001900.1 + 3344 0.66 0.359906
Target:  5'- cCCCuGGCCUGCgggcgaccUGUUCCUcgaacuggagaCCGGCgGCg -3'
miRNA:   3'- -GGGuCUGGACG--------ACGAGGG-----------GGUCGgUG- -5'
7335 3' -61.8 NC_001900.1 + 44315 0.66 0.351648
Target:  5'- uCCCGGACUcGaaGCUCCCCgucGaCCACg -3'
miRNA:   3'- -GGGUCUGGaCgaCGAGGGGgu-C-GGUG- -5'
7335 3' -61.8 NC_001900.1 + 25056 0.66 0.343525
Target:  5'- aCCCacugGGACCguugcgGCUGCgCCgCC-GCCACc -3'
miRNA:   3'- -GGG----UCUGGa-----CGACGaGGgGGuCGGUG- -5'
7335 3' -61.8 NC_001900.1 + 27063 0.66 0.343525
Target:  5'- gCCUGGGCgCUGCUGaUCCUCUcGUCGCu -3'
miRNA:   3'- -GGGUCUG-GACGACgAGGGGGuCGGUG- -5'
7335 3' -61.8 NC_001900.1 + 33385 0.66 0.319974
Target:  5'- aCCCAGACCguggaGgUGCggCCUgcgCCGGCCGa -3'
miRNA:   3'- -GGGUCUGGa----CgACGa-GGG---GGUCGGUg -5'
7335 3' -61.8 NC_001900.1 + 789 0.67 0.297655
Target:  5'- uUCCAGACC-GCUGCggCCCguGgCAUg -3'
miRNA:   3'- -GGGUCUGGaCGACGagGGGguCgGUG- -5'
7335 3' -61.8 NC_001900.1 + 33011 0.67 0.296932
Target:  5'- gCCAGgggcuuccugcGCCUGCUGCggagCCCgagacuggugcugCUGGCCACc -3'
miRNA:   3'- gGGUC-----------UGGACGACGa---GGG-------------GGUCGGUG- -5'
7335 3' -61.8 NC_001900.1 + 3253 0.67 0.283457
Target:  5'- aCCCGuucGACCUGgagaUGCUCUgccuggucaCCGGCCGCg -3'
miRNA:   3'- -GGGU---CUGGACg---ACGAGGg--------GGUCGGUG- -5'
7335 3' -61.8 NC_001900.1 + 32151 0.67 0.276562
Target:  5'- uCCCGGAgCUGCcgaaGCaaUUCCCCuGCCAg -3'
miRNA:   3'- -GGGUCUgGACGa---CG--AGGGGGuCGGUg -5'
7335 3' -61.8 NC_001900.1 + 1283 0.67 0.27588
Target:  5'- aCCGGuGCCUGCguUGC-CggugccuaaaccgCCCCGGCCGCu -3'
miRNA:   3'- gGGUC-UGGACG--ACGaG-------------GGGGUCGGUG- -5'
7335 3' -61.8 NC_001900.1 + 39234 0.68 0.262519
Target:  5'- cUCCAGcgagcgaucgacuACCUGCguaagCCCCCGGCCGu -3'
miRNA:   3'- -GGGUC-------------UGGACGacga-GGGGGUCGGUg -5'
7335 3' -61.8 NC_001900.1 + 38255 0.68 0.25668
Target:  5'- aCCCAG-CCggGUUGC-CgCCCguGCCACc -3'
miRNA:   3'- -GGGUCuGGa-CGACGaG-GGGguCGGUG- -5'
7335 3' -61.8 NC_001900.1 + 6534 0.69 0.226162
Target:  5'- cUCCAGAgCCUGCUugacgcGCUCgaCCUCAGCCuCa -3'
miRNA:   3'- -GGGUCU-GGACGA------CGAG--GGGGUCGGuG- -5'
7335 3' -61.8 NC_001900.1 + 23152 0.69 0.22044
Target:  5'- gCCCGGAggcuaCCUgGCUcGCggugUCCCgCAGCCACu -3'
miRNA:   3'- -GGGUCU-----GGA-CGA-CG----AGGGgGUCGGUG- -5'
7335 3' -61.8 NC_001900.1 + 22971 0.69 0.219875
Target:  5'- aUCCAGACCaucguggacaugcUGCUGCaggCCCUCGGCaucaACc -3'
miRNA:   3'- -GGGUCUGG-------------ACGACGa--GGGGGUCGg---UG- -5'
7335 3' -61.8 NC_001900.1 + 44432 0.71 0.165318
Target:  5'- aCCCAGAUCUcCUgGCcgggagUCCCCC-GCCACg -3'
miRNA:   3'- -GGGUCUGGAcGA-CG------AGGGGGuCGGUG- -5'
7335 3' -61.8 NC_001900.1 + 30357 1.1 0.000156
Target:  5'- uCCCAGACCUGCUGCUCCCCCAGCCACu -3'
miRNA:   3'- -GGGUCUGGACGACGAGGGGGUCGGUG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.